A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.
/lustre1/home/mass/amalia/montipora_mapping/Ariana_samples/logs/hisat2
General Statistics
| Sample Name | % Aligned |
|---|---|
| SRR14864064_hisat2 | 62.3% |
| SRR14864065_hisat2 | 63.9% |
| SRR14864066_hisat2 | 47.0% |
| SRR14864067_hisat2 | 71.5% |
| SRR14864068_hisat2 | 70.5% |
| SRR14864069_hisat2 | 78.3% |
| SRR14864070_hisat2 | 80.5% |
| SRR14864071_hisat2 | 79.4% |
| SRR14864072_hisat2 | 71.7% |
| SRR22293445_hisat2 | 56.7% |
| SRR22293446_hisat2 | 54.3% |
| SRR22293447_hisat2 | 58.0% |
| SRR22293448_hisat2 | 61.8% |
| SRR22293449_hisat2 | 57.6% |
| SRR22293450_hisat2 | 58.5% |
| SRR22293451_hisat2 | 54.5% |
| SRR22293452_hisat2 | 50.7% |
| SRR22293453_hisat2 | 48.0% |
| SRR22293454_hisat2 | 49.4% |
| SRR22293455_hisat2 | 47.2% |
| SRR22293456_hisat2 | 50.1% |
| SRR22293457_hisat2 | 46.9% |
| SRR22293458_hisat2 | 60.0% |
| SRR22293459_hisat2 | 56.2% |
| SRR22293460_hisat2 | 52.9% |
| SRR22293461_hisat2 | 59.3% |
| SRR22293462_hisat2 | 63.5% |
| SRR22293463_hisat2 | 59.5% |
| SRR22293464_hisat2 | 55.9% |
| SRR22293465_hisat2 | 55.4% |
| SRR22293466_hisat2 | 56.4% |
| SRR22293467_hisat2 | 50.4% |
| SRR22293468_hisat2 | 57.6% |
| SRR22293469_hisat2 | 62.4% |
| SRR22293470_hisat2 | 59.6% |
| SRR22293471_hisat2 | 54.4% |
| SRR22293472_hisat2 | 61.0% |
| SRR22293473_hisat2 | 46.8% |
| SRR22293474_hisat2 | 55.8% |
| SRR22293475_hisat2 | 55.0% |
| SRR22293476_hisat2 | 54.1% |
| SRR22293477_hisat2 | 57.4% |
| SRR22293478_hisat2 | 56.7% |
| SRR22293479_hisat2 | 57.8% |
| SRR22293480_hisat2 | 56.8% |
| SRR22293481_hisat2 | 59.0% |
| SRR22293482_hisat2 | 50.9% |
| SRR22293483_hisat2 | 49.6% |
Bowtie 2 / HiSAT2
Results from both Bowtie 2 and HISAT2, tools for aligning reads against a reference genome.URL: http://bowtie-bio.sourceforge.net/bowtie2; https://ccb.jhu.edu/software/hisat2DOI: 10.1038/nmeth.1923; 10.1038/nmeth.3317; 10.1038/s41587-019-0201-4
Single-end alignments
This plot shows the number of reads aligning to the reference in different ways.
There are 3 possible types of alignment:
- SE mapped uniquely: Read has only one occurence in the reference genome.
- SE multimapped: Read has multiple occurence.
- SE not aligned: Read has no occurence.
Paired-end alignments
This plot shows the number of reads aligning to the reference in different ways.
There are 6 possible types of alignment:
- PE mapped uniquely: Pair has only one occurence in the reference genome.
- PE mapped discordantly uniquely: Pair has only one occurence but not in proper pair.
- PE one mate mapped uniquely: One read of a pair has one occurence.
- PE multimapped: Pair has multiple occurence.
- PE one mate multimapped: One read of a pair has multiple occurence.
- PE neither mate aligned: Pair has no occurence.